Help:Tutorial

From WikiPathways

Revision as of 12:43, 26 March 2008

This tutorial explains you how to create a pathway on WikiPathways, using the Circadian clock pathway as example.

The circadian clock pathway

The circadian clock is a molecular mechanism that maintains the cell's 24-hour molecular rhythm by driving the rhythmic expression of a wide range of genes, involved in metabolism, physiology and behaviour. In this tutorial, you will draw a simplified version of the pathway, restricting to the mPer/mCry feedback loop.

Step by step guide to drawing the circadian clock pathway

The following pages show you step-by-step how to draw a simplified version of the circadian clock pathway as described in the section above.

• Step 1: Log in to WikiPathways
• Step 2: Create a new pathway
• Step 3: The proteins of the circadian clock pathway
• Step 4: Illustrate the E-box enhancer
• Step 5: Clock and Bmal1 dimerize and bind to the E-box element
• Step 6: Target genes are activated by the E-box element
• Step 7: The negative feedback loop
• Step 8: Draw cellular locations
• Step 9: Adding bibliography
• Step 10: Adding a description

Commonly used terms

Sidepanel

The panel containing the Properties and Backpage tabs (see screenshot 1B).

Drawing area

The area on which the pathway is drawn (see screenshot 1A).

Property table

The table where you can edit properties of the currently selected object(s). The property

table is located in the sidepanel under the tab named 'Properties'.

Backpage browser

A panel that gives detailed annotation info on the currently selected DataNode. The Backpage browser

is located in the sidepanel under the tab named 'Backpage'.

Toolbar

see screenshot 1C.

Infobox

Displays information about the pathway (see screenshot 1D).

Screenshot 1: the editor applet